Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A5 F21 I0 R1
|
148 |
22.8 |
1772010 |
97.0% |
1718849 |
61.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,704,876 |
C→T |
57.1% |
M164I (ATG→ATA) |
trkD ← |
potassium transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,704,876 | 0 | C | T | 57.1%
| 3.1
/ 24.0
| 21 | M164I (ATG→ATA) | trkD | potassium transporter |
| Reads supporting (aligned to +/- strand): ref base C (5/4); new base T (7/5); total (12/9) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGTAACCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGG > W3110S.gb/3704811‑3704933
|
cGTAACCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACtata < 1:996380/69‑1 (MQ=255)
cGTAACCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACtata < 1:1538098/69‑1 (MQ=255)
gTAACCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGcc < 1:1724470/71‑1 (MQ=255)
gTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGCCGTGCCATGt < 1:1264188/71‑1 (MQ=255)
tCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGCCGTg < 1:1132189/64‑1 (MQ=255)
ccAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTGa < 1:953260/71‑1 (MQ=255)
aaTCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATc < 1:315359/70‑1 (MQ=255)
tCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCat > 1:862085/1‑70 (MQ=255)
tCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCat > 1:511747/1‑70 (MQ=255)
aaaCCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCataaa > 1:405230/1‑69 (MQ=255)
aaaCCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCataaata < 1:1298394/71‑1 (MQ=255)
aGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGt > 1:952619/1‑68 (MQ=255)
aTGATCGGCGCAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCa < 1:941009/52‑1 (MQ=255)
ggCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCataa > 1:1336017/1‑49 (MQ=255)
ggCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAAt > 1:1675299/1‑71 (MQ=255)
aaCAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTga > 1:1635169/1‑68 (MQ=255)
aaCAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTga > 1:1054571/1‑68 (MQ=255)
aaCAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAAt < 1:1198336/65‑1 (MQ=255)
aCAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATaaa > 1:988874/1‑50 (MQ=255)
aCAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAgg > 1:63037/1‑71 (MQ=255)
aCAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAgg > 1:639246/1‑71 (MQ=255)
cAGCTTACCGACTATAGCCGTGCCATGTTTTTGaa > 1:417825/1‑35 (MQ=255)
cTTACCGACCATAGCCGTGCCATGTTTTTGAATCataaat < 1:197464/40‑1 (MQ=255)
|
CGTAACCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGG > W3110S.gb/3704811‑3704933
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
